ID   RRP4_THEKO              Reviewed;         257 AA.
AC   Q5JIR5;
DT   30-AUG-2005, integrated into UniProtKB/Swiss-Prot.
DT   15-FEB-2005, sequence version 1.
DT   25-MAY-2022, entry version 93.
DE   RecName: Full=Exosome complex component Rrp4 {ECO:0000255|HAMAP-Rule:MF_00623};
GN   Name=rrp4 {ECO:0000255|HAMAP-Rule:MF_00623}; OrderedLocusNames=TK1635;
OS   Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
OS   (Pyrococcus kodakaraensis (strain KOD1)).
OC   Archaea; Euryarchaeota; Thermococci; Thermococcales; Thermococcaceae;
OC   Thermococcus.
OX   NCBI_TaxID=69014;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=ATCC BAA-918 / JCM 12380 / KOD1;
RX   PubMed=15710748; DOI=10.1101/gr.3003105;
RA   Fukui T., Atomi H., Kanai T., Matsumi R., Fujiwara S., Imanaka T.;
RT   "Complete genome sequence of the hyperthermophilic archaeon Thermococcus
RT   kodakaraensis KOD1 and comparison with Pyrococcus genomes.";
RL   Genome Res. 15:352-363(2005).
CC   -!- FUNCTION: Non-catalytic component of the exosome, which is a complex
CC       involved in RNA degradation. Increases the RNA binding and the
CC       efficiency of RNA degradation. Confers strong poly(A) specificity to
CC       the exosome. {ECO:0000255|HAMAP-Rule:MF_00623}.
CC   -!- SUBUNIT: Component of the archaeal exosome complex. Forms a trimer of
CC       Rrp4 and/or Csl4 subunits. The trimer associates with a hexameric ring-
CC       like arrangement composed of 3 Rrp41-Rrp42 heterodimers.
CC       {ECO:0000255|HAMAP-Rule:MF_00623}.
CC   -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000255|HAMAP-Rule:MF_00623}.
CC   -!- SIMILARITY: Belongs to the RRP4 family. {ECO:0000255|HAMAP-
CC       Rule:MF_00623}.
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DR   EMBL; AP006878; BAD85824.1; -; Genomic_DNA.
DR   RefSeq; WP_011250586.1; NC_006624.1.
DR   AlphaFoldDB; Q5JIR5; -.
DR   SMR; Q5JIR5; -.
DR   STRING; 69014.TK1635; -.
DR   EnsemblBacteria; BAD85824; BAD85824; TK1635.
DR   GeneID; 3234974; -.
DR   KEGG; tko:TK1635; -.
DR   PATRIC; fig|69014.16.peg.1594; -.
DR   eggNOG; arCOG00678; Archaea.
DR   HOGENOM; CLU_071769_0_0_2; -.
DR   InParanoid; Q5JIR5; -.
DR   OMA; GPYIPEV; -.
DR   OrthoDB; 93052at2157; -.
DR   PhylomeDB; Q5JIR5; -.
DR   Proteomes; UP000000536; Chromosome.
DR   GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR   GO; GO:0000178; C:exosome (RNase complex); IBA:GO_Central.
DR   GO; GO:0008143; F:poly(A) binding; IEA:InterPro.
DR   GO; GO:0003723; F:RNA binding; IBA:GO_Central.
DR   GO; GO:0071034; P:CUT catabolic process; IBA:GO_Central.
DR   GO; GO:0043928; P:exonucleolytic catabolism of deadenylated mRNA; IBA:GO_Central.
DR   GO; GO:0000467; P:exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IBA:GO_Central.
DR   GO; GO:0071051; P:polyadenylation-dependent snoRNA 3'-end processing; IBA:GO_Central.
DR   GO; GO:0034475; P:U4 snRNA 3'-end processing; IBA:GO_Central.
DR   Gene3D; 2.40.50.140; -; 1.
DR   Gene3D; 3.30.1370.10; -; 1.
DR   HAMAP; MF_00623; Exosome_Rrp4; 1.
DR   InterPro; IPR026699; Exosome_RNA_bind1/RRP40/RRP4.
DR   InterPro; IPR004087; KH_dom.
DR   InterPro; IPR004088; KH_dom_type_1.
DR   InterPro; IPR036612; KH_dom_type_1_sf.
DR   InterPro; IPR012340; NA-bd_OB-fold.
DR   InterPro; IPR023474; Rrp4.
DR   InterPro; IPR022967; S1_dom.
DR   InterPro; IPR003029; S1_domain.
DR   PANTHER; PTHR21321; PTHR21321; 1.
DR   Pfam; PF15985; KH_6; 1.
DR   SMART; SM00322; KH; 1.
DR   SMART; SM00316; S1; 1.
DR   SUPFAM; SSF50249; SSF50249; 1.
DR   SUPFAM; SSF54791; SSF54791; 1.
DR   PROSITE; PS50084; KH_TYPE_1; 1.
DR   PROSITE; PS50126; S1; 1.
PE   3: Inferred from homology;
KW   Cytoplasm; Exosome; Reference proteome; RNA-binding.
FT   CHAIN           1..257
FT                   /note="Exosome complex component Rrp4"
FT                   /id="PRO_0000050154"
FT   DOMAIN          65..137
FT                   /note="S1 motif"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00623"
FT   DOMAIN          147..206
FT                   /note="KH"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00623"
SQ   SEQUENCE   257 AA;  28317 MW;  74BA61AD7CE3A2AB CRC64;
     MKKIFVKPRE LVVPGTLLAQ GPFKNGRGTF REGNAIYSTV IGLVEIRGNV IRVIPLEGPY
     IPEVGDNVLG KIVDVKFSSW TVDIGAPYQA SLRVQDAVEE RIDLLKTDLR KIFDIGDIIY
     AKVKAFNEVN QIDLTTKGMP FKGGPLRGGQ LVTITPSKVP RLIGKGGSMI NMIKTLTGTR
     IIVGQNGWVW VSGKNDELER LAIEAILKVD RESHTQGLTD RVKEFLLSRL RELKEQGVIE
     EIPEVNGEEG GEDDGQA